0s autopkgtest [02:38:45]: starting date and time: 2024-03-20 02:38:45+0000 0s autopkgtest [02:38:45]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [02:38:45]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.89lrcuj0/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:jellyfish,src:booth,src:cmake,src:cod-tools,src:curl,src:cyrus-imapd,src:db5.3,src:feature-check,src:gdbm,src:gearmand,src:gnutls28,src:gromacs,src:htslib,src:inn2,src:konclude,src:libdbd-mariadb-perl,src:libdbd-mysql-perl,src:libpsl,src:libwebsockets,src:lighttpd,src:mmdebstrap,src:netatalk,src:nettle,src:openbsd-inetd,src:openssl,src:perl,src:postgresql-16,src:puppet-lint,src:puppet-module-puppetlabs-stdlib,src:spiped,src:systemd,src:zile --apt-upgrade centrifuge --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=jellyfish/2.3.1-3 booth/1.1-1ubuntu3 cmake/3.28.3-1build5 cod-tools/3.8.1+dfsg-1build2 curl/8.5.0-2ubuntu7 cyrus-imapd/3.8.1-3build2 db5.3/5.3.28+dfsg2-5build1 feature-check/2.1.0-2 gdbm/1.23-5.1 gearmand/1.1.20+ds-1.2 gnutls28/3.8.3-1.1ubuntu2 gromacs/2023.3-1ubuntu2 htslib/1.19+ds-1.1build2 inn2/2.7.2~20240212-1build2 konclude/0.7.0+1138+git20220514~dfsg-1build1 libdbd-mariadb-perl/1.22-1build3 libdbd-mysql-perl/4.052-1ubuntu2 libpsl/0.21.2-1.1 libwebsockets/4.3.3-1.1build1 lighttpd/1.4.74-1ubuntu2 mmdebstrap/1.4.3-6 netatalk/3.1.18~ds-1build2 nettle/3.9.1-2.2 openbsd-inetd/0.20221205-3build2 openssl/3.0.13-0ubuntu2 perl/5.38.2-3.2 postgresql-16/16.2-1ubuntu2 puppet-lint/4.2.4-2 puppet-module-puppetlabs-stdlib/9.4.1-1 spiped/1.6.2-3build1 systemd/255.4-1ubuntu5 zile/2.6.2-2build1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-arm64-10.secgroup --name adt-noble-arm64-centrifuge-20240320-023845-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 121s autopkgtest [02:40:46]: testbed dpkg architecture: arm64 121s autopkgtest [02:40:46]: testbed apt version: 2.7.12 121s autopkgtest [02:40:46]: @@@@@@@@@@@@@@@@@@@@ test bed setup 122s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 123s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3804 kB] 124s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [496 kB] 124s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [52.7 kB] 124s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 124s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [671 kB] 124s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B] 124s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [41.7 kB] 124s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B] 124s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [4165 kB] 124s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B] 124s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 Packages [56.7 kB] 124s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B] 134s Fetched 9423 kB in 5s (2023 kB/s) 134s Reading package lists... 140s Reading package lists... 140s Building dependency tree... 140s Reading state information... 142s Calculating upgrade... 143s The following packages were automatically installed and are no longer required: 143s libgdbm-compat4t64 libperl5.38 lto-disabled-list make perl-modules-5.38 143s Use 'sudo apt autoremove' to remove them. 143s The following packages will be REMOVED: 143s dpkg-dev libdpkg-perl libgdbm-compat4 libgdbm6 libssl3 perl 143s The following NEW packages will be installed: 143s libgdbm-compat4t64 libgdbm6t64 libssl3t64 143s The following packages have been kept back: 143s curl 143s The following packages will be upgraded: 143s libnss-systemd libpam-systemd libsystemd-shared libsystemd0 libudev1 openssl 143s perl-base perl-modules-5.38 systemd systemd-dev systemd-resolved 143s systemd-sysv systemd-timesyncd udev 144s 14 upgraded, 3 newly installed, 6 to remove and 1 not upgraded. 144s Need to get 16.4 MB of archives. 144s After this operation, 4059 kB disk space will be freed. 144s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 perl-base arm64 5.38.2-3.2 [1777 kB] 144s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgdbm6t64 arm64 1.23-5.1 [34.3 kB] 144s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgdbm-compat4t64 arm64 1.23-5.1 [6576 B] 144s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 systemd-resolved arm64 255.4-1ubuntu5 [291 kB] 144s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libnss-systemd arm64 255.4-1ubuntu5 [154 kB] 144s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 systemd-dev all 255.4-1ubuntu5 [103 kB] 144s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libssl3t64 arm64 3.0.13-0ubuntu2 [1793 kB] 144s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 systemd arm64 255.4-1ubuntu5 [3403 kB] 145s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 udev arm64 255.4-1ubuntu5 [1852 kB] 145s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 systemd-sysv arm64 255.4-1ubuntu5 [11.9 kB] 145s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpam-systemd arm64 255.4-1ubuntu5 [232 kB] 145s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 openssl arm64 3.0.13-0ubuntu2 [985 kB] 145s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 systemd-timesyncd arm64 255.4-1ubuntu5 [34.8 kB] 145s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libsystemd-shared arm64 255.4-1ubuntu5 [2016 kB] 146s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libudev1 arm64 255.4-1ubuntu5 [173 kB] 146s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libsystemd0 arm64 255.4-1ubuntu5 [424 kB] 146s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 perl-modules-5.38 all 5.38.2-3.2 [3110 kB] 147s Fetched 16.4 MB in 2s (7134 kB/s) 147s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75850 files and directories currently installed.) 147s Removing dpkg-dev (1.22.4ubuntu5) ... 147s Removing libdpkg-perl (1.22.4ubuntu5) ... 147s Removing perl (5.38.2-3) ... 148s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75269 files and directories currently installed.) 148s Preparing to unpack .../perl-base_5.38.2-3.2_arm64.deb ... 148s Unpacking perl-base (5.38.2-3.2) over (5.38.2-3) ... 149s Setting up perl-base (5.38.2-3.2) ... 149s dpkg: libgdbm6:arm64: dependency problems, but removing anyway as you requested: 149s python3-gdbm:arm64 depends on libgdbm6 (>= 1.16). 149s man-db depends on libgdbm6 (>= 1.16). 149s libperl5.38:arm64 depends on libgdbm6 (>= 1.21). 149s libgdbm-compat4:arm64 depends on libgdbm6 (>= 1.16). 149s 149s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75269 files and directories currently installed.) 149s Removing libgdbm6:arm64 (1.23-5) ... 149s Selecting previously unselected package libgdbm6t64:arm64. 149s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75264 files and directories currently installed.) 149s Preparing to unpack .../libgdbm6t64_1.23-5.1_arm64.deb ... 149s Unpacking libgdbm6t64:arm64 (1.23-5.1) ... 149s dpkg: libgdbm-compat4:arm64: dependency problems, but removing anyway as you requested: 149s libperl5.38:arm64 depends on libgdbm-compat4 (>= 1.18-3). 149s 149s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75270 files and directories currently installed.) 149s Removing libgdbm-compat4:arm64 (1.23-5) ... 149s Selecting previously unselected package libgdbm-compat4t64:arm64. 150s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75265 files and directories currently installed.) 150s Preparing to unpack .../libgdbm-compat4t64_1.23-5.1_arm64.deb ... 150s Unpacking libgdbm-compat4t64:arm64 (1.23-5.1) ... 150s Preparing to unpack .../systemd-resolved_255.4-1ubuntu5_arm64.deb ... 150s Unpacking systemd-resolved (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 150s Preparing to unpack .../libnss-systemd_255.4-1ubuntu5_arm64.deb ... 150s Unpacking libnss-systemd:arm64 (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 150s Preparing to unpack .../systemd-dev_255.4-1ubuntu5_all.deb ... 150s Unpacking systemd-dev (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 150s dpkg: libssl3:arm64: dependency problems, but removing anyway as you requested: 150s wget depends on libssl3 (>= 3.0.0). 150s u-boot-tools depends on libssl3 (>= 3.0.0). 150s tnftp depends on libssl3 (>= 3.0.0). 150s tcpdump depends on libssl3 (>= 3.0.0). 150s systemd depends on libssl3 (>= 3.0.0). 150s sudo depends on libssl3 (>= 3.0.0). 150s sbsigntool depends on libssl3 (>= 3.0.0). 150s rsync depends on libssl3 (>= 3.0.0). 150s python3-cryptography depends on libssl3 (>= 3.0.0). 150s openssl depends on libssl3 (>= 3.0.9). 150s openssh-server depends on libssl3 (>= 3.0.10). 150s openssh-client depends on libssl3 (>= 3.0.10). 150s mtd-utils depends on libssl3 (>= 3.0.0). 150s mokutil depends on libssl3 (>= 3.0.0). 150s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 150s libsystemd-shared:arm64 depends on libssl3 (>= 3.0.0). 150s libssh-4:arm64 depends on libssl3 (>= 3.0.0). 150s libsasl2-modules:arm64 depends on libssl3 (>= 3.0.0). 150s libsasl2-2:arm64 depends on libssl3 (>= 3.0.0). 150s libpython3.12-minimal:arm64 depends on libssl3 (>= 3.0.0). 150s libpython3.11-minimal:arm64 depends on libssl3 (>= 3.0.0). 150s libnvme1 depends on libssl3 (>= 3.0.0). 150s libkrb5-3:arm64 depends on libssl3 (>= 3.0.0). 150s libkmod2:arm64 depends on libssl3 (>= 3.0.0). 150s libfido2-1:arm64 depends on libssl3 (>= 3.0.0). 150s libcurl4:arm64 depends on libssl3 (>= 3.0.0). 150s libcryptsetup12:arm64 depends on libssl3 (>= 3.0.0). 150s kmod depends on libssl3 (>= 3.0.0). 150s dhcpcd-base depends on libssl3 (>= 3.0.0). 150s bind9-libs:arm64 depends on libssl3 (>= 3.0.0). 150s 150s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75271 files and directories currently installed.) 150s Removing libssl3:arm64 (3.0.10-1ubuntu4) ... 150s Selecting previously unselected package libssl3t64:arm64. 151s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75260 files and directories currently installed.) 151s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_arm64.deb ... 151s Unpacking libssl3t64:arm64 (3.0.13-0ubuntu2) ... 151s Setting up libssl3t64:arm64 (3.0.13-0ubuntu2) ... 151s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75273 files and directories currently installed.) 151s Preparing to unpack .../systemd_255.4-1ubuntu5_arm64.deb ... 151s Unpacking systemd (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 152s Preparing to unpack .../udev_255.4-1ubuntu5_arm64.deb ... 152s Unpacking udev (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 153s Preparing to unpack .../libsystemd-shared_255.4-1ubuntu5_arm64.deb ... 153s Unpacking libsystemd-shared:arm64 (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 153s Setting up libsystemd-shared:arm64 (255.4-1ubuntu5) ... 153s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75273 files and directories currently installed.) 153s Preparing to unpack .../libsystemd0_255.4-1ubuntu5_arm64.deb ... 153s Unpacking libsystemd0:arm64 (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 154s Setting up libsystemd0:arm64 (255.4-1ubuntu5) ... 154s Setting up systemd-dev (255.4-1ubuntu5) ... 154s Setting up systemd (255.4-1ubuntu5) ... 157s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75273 files and directories currently installed.) 157s Preparing to unpack .../systemd-sysv_255.4-1ubuntu5_arm64.deb ... 157s Unpacking systemd-sysv (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 157s Preparing to unpack .../libpam-systemd_255.4-1ubuntu5_arm64.deb ... 157s Unpacking libpam-systemd:arm64 (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 157s Preparing to unpack .../openssl_3.0.13-0ubuntu2_arm64.deb ... 157s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 158s Preparing to unpack .../systemd-timesyncd_255.4-1ubuntu5_arm64.deb ... 158s Unpacking systemd-timesyncd (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 158s Preparing to unpack .../libudev1_255.4-1ubuntu5_arm64.deb ... 158s Unpacking libudev1:arm64 (255.4-1ubuntu5) over (255.2-3ubuntu2) ... 158s Setting up libudev1:arm64 (255.4-1ubuntu5) ... 158s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75273 files and directories currently installed.) 158s Preparing to unpack .../perl-modules-5.38_5.38.2-3.2_all.deb ... 158s Unpacking perl-modules-5.38 (5.38.2-3.2) over (5.38.2-3) ... 160s Setting up systemd-sysv (255.4-1ubuntu5) ... 160s Setting up libgdbm6t64:arm64 (1.23-5.1) ... 160s Setting up libgdbm-compat4t64:arm64 (1.23-5.1) ... 160s Setting up libnss-systemd:arm64 (255.4-1ubuntu5) ... 160s Setting up perl-modules-5.38 (5.38.2-3.2) ... 160s Setting up systemd-timesyncd (255.4-1ubuntu5) ... 162s Setting up udev (255.4-1ubuntu5) ... 165s Setting up libpam-systemd:arm64 (255.4-1ubuntu5) ... 166s Setting up openssl (3.0.13-0ubuntu2) ... 166s Setting up systemd-resolved (255.4-1ubuntu5) ... 168s Processing triggers for libc-bin (2.39-0ubuntu2) ... 168s Processing triggers for man-db (2.12.0-3) ... 170s Processing triggers for dbus (1.14.10-4ubuntu1) ... 170s Processing triggers for initramfs-tools (0.142ubuntu20) ... 170s update-initramfs: Generating /boot/initrd.img-6.8.0-11-generic 170s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 236s System running in EFI mode, skipping. 237s Reading package lists... 237s Building dependency tree... 237s Reading state information... 239s The following packages will be REMOVED: 239s libgdbm-compat4t64* libperl5.38* lto-disabled-list* make* perl-modules-5.38* 240s 0 upgraded, 0 newly installed, 5 to remove and 1 not upgraded. 240s After this operation, 52.0 MB disk space will be freed. 240s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75273 files and directories currently installed.) 240s Removing libperl5.38:arm64 (5.38.2-3) ... 240s Removing libgdbm-compat4t64:arm64 (1.23-5.1) ... 240s Removing lto-disabled-list (47) ... 240s Removing make (4.3-4.1build1) ... 240s Removing perl-modules-5.38 (5.38.2-3.2) ... 241s Processing triggers for man-db (2.12.0-3) ... 241s Processing triggers for libc-bin (2.39-0ubuntu2) ... 243s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 243s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 243s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 243s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 248s Reading package lists... 249s Reading package lists... 249s Building dependency tree... 249s Reading state information... 251s Calculating upgrade... 252s The following packages have been kept back: 252s curl 252s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 252s Reading package lists... 253s Building dependency tree... 253s Reading state information... 254s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 255s autopkgtest [02:43:00]: rebooting testbed after setup commands that affected boot 415s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 424s autopkgtest [02:45:49]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 02:53:31 UTC 2024 427s autopkgtest [02:45:52]: @@@@@@@@@@@@@@@@@@@@ apt-source centrifuge 432s Reading package lists... 432s Building dependency tree... 432s Reading state information... 433s Starting pkgProblemResolver with broken count: 0 434s Starting 2 pkgProblemResolver with broken count: 0 434s Done 435s The following additional packages will be installed: 435s dpkg-dev libdb5.3t64 libdpkg-perl libgdbm-compat4t64 libperl5.38t64 435s lto-disabled-list make perl perl-modules-5.38 435s Suggested packages: 435s debian-keyring gcc | c-compiler git bzr make-doc perl-doc 435s libterm-readline-gnu-perl | libterm-readline-perl-perl 435s libtap-harness-archive-perl 435s Recommended packages: 435s build-essential gcc | c-compiler fakeroot libalgorithm-merge-perl 435s libfile-fcntllock-perl 436s The following packages will be REMOVED: 436s libdb5.3 436s The following NEW packages will be installed: 436s autopkgtest-satdep dpkg-dev libdb5.3t64 libdpkg-perl libgdbm-compat4t64 436s libperl5.38t64 lto-disabled-list make perl perl-modules-5.38 436s 0 upgraded, 10 newly installed, 1 to remove and 1 not upgraded. 436s Need to get 7257 kB/10.4 MB of archives. 436s After this operation, 56.1 MB of additional disk space will be used. 436s Get:1 /tmp/autopkgtest.fElsYB/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [704 B] 436s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libdb5.3t64 arm64 5.3.28+dfsg2-5build1 [719 kB] 436s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libperl5.38t64 arm64 5.38.2-3.2 [4771 kB] 437s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 perl arm64 5.38.2-3.2 [231 kB] 437s Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 libdpkg-perl all 1.22.4ubuntu5 [268 kB] 437s Get:6 http://ftpmaster.internal/ubuntu noble/main arm64 make arm64 4.3-4.1build1 [177 kB] 437s Get:7 http://ftpmaster.internal/ubuntu noble/main arm64 lto-disabled-list all 47 [12.4 kB] 437s Get:8 http://ftpmaster.internal/ubuntu noble/main arm64 dpkg-dev all 1.22.4ubuntu5 [1078 kB] 438s Fetched 7257 kB in 1s (6916 kB/s) 438s dpkg: libdb5.3:arm64: dependency problems, but removing anyway as you requested: 438s libsasl2-modules-db:arm64 depends on libdb5.3. 438s libpython3.12-stdlib:arm64 depends on libdb5.3. 438s libpython3.11-stdlib:arm64 depends on libdb5.3. 438s libpam-modules:arm64 depends on libdb5.3. 438s iproute2 depends on libdb5.3. 438s apt-utils depends on libdb5.3. 438s 438s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 73302 files and directories currently installed.) 438s Removing libdb5.3:arm64 (5.3.28+dfsg2-4) ... 438s Selecting previously unselected package libdb5.3t64:arm64. 439s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 73296 files and directories currently installed.) 439s Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-5build1_arm64.deb ... 439s Unpacking libdb5.3t64:arm64 (5.3.28+dfsg2-5build1) ... 439s Setting up libdb5.3t64:arm64 (5.3.28+dfsg2-5build1) ... 439s Selecting previously unselected package perl-modules-5.38. 439s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 73302 files and directories currently installed.) 439s Preparing to unpack .../0-perl-modules-5.38_5.38.2-3.2_all.deb ... 439s Unpacking perl-modules-5.38 (5.38.2-3.2) ... 440s Selecting previously unselected package libgdbm-compat4t64:arm64. 440s Preparing to unpack .../1-libgdbm-compat4t64_1.23-5.1_arm64.deb ... 440s Unpacking libgdbm-compat4t64:arm64 (1.23-5.1) ... 440s Selecting previously unselected package libperl5.38t64:arm64. 440s Preparing to unpack .../2-libperl5.38t64_5.38.2-3.2_arm64.deb ... 440s Unpacking libperl5.38t64:arm64 (5.38.2-3.2) ... 441s Selecting previously unselected package perl. 441s Preparing to unpack .../3-perl_5.38.2-3.2_arm64.deb ... 441s Unpacking perl (5.38.2-3.2) ... 441s Selecting previously unselected package libdpkg-perl. 441s Preparing to unpack .../4-libdpkg-perl_1.22.4ubuntu5_all.deb ... 441s Unpacking libdpkg-perl (1.22.4ubuntu5) ... 442s Selecting previously unselected package make. 442s Preparing to unpack .../5-make_4.3-4.1build1_arm64.deb ... 442s Unpacking make (4.3-4.1build1) ... 442s Selecting previously unselected package lto-disabled-list. 442s Preparing to unpack .../6-lto-disabled-list_47_all.deb ... 442s Unpacking lto-disabled-list (47) ... 442s Selecting previously unselected package dpkg-dev. 442s Preparing to unpack .../7-dpkg-dev_1.22.4ubuntu5_all.deb ... 442s Unpacking dpkg-dev (1.22.4ubuntu5) ... 442s Selecting previously unselected package autopkgtest-satdep. 442s Preparing to unpack .../8-1-autopkgtest-satdep.deb ... 442s Unpacking autopkgtest-satdep (0) ... 442s Setting up lto-disabled-list (47) ... 442s Setting up libgdbm-compat4t64:arm64 (1.23-5.1) ... 442s Setting up make (4.3-4.1build1) ... 442s Setting up perl-modules-5.38 (5.38.2-3.2) ... 442s Setting up libperl5.38t64:arm64 (5.38.2-3.2) ... 442s Setting up perl (5.38.2-3.2) ... 442s Setting up libdpkg-perl (1.22.4ubuntu5) ... 442s Setting up dpkg-dev (1.22.4ubuntu5) ... 442s Setting up autopkgtest-satdep (0) ... 442s Processing triggers for man-db (2.12.0-3) ... 444s Processing triggers for libc-bin (2.39-0ubuntu2) ... 451s (Reading database ... 75854 files and directories currently installed.) 451s Removing autopkgtest-satdep (0) ... 453s Get:1 http://ftpmaster.internal/ubuntu noble/universe centrifuge 1.0.3-11 (dsc) [2037 B] 453s Get:2 http://ftpmaster.internal/ubuntu noble/universe centrifuge 1.0.3-11 (tar) [701 kB] 453s Get:3 http://ftpmaster.internal/ubuntu noble/universe centrifuge 1.0.3-11 (diff) [15.2 kB] 453s gpgv: Signature made Mon Oct 10 05:56:45 2022 UTC 453s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 453s gpgv: issuer "tille@debian.org" 453s gpgv: Can't check signature: No public key 453s dpkg-source: warning: cannot verify inline signature for ./centrifuge_1.0.3-11.dsc: no acceptable signature found 454s autopkgtest [02:46:19]: testing package centrifuge version 1.0.3-11 454s autopkgtest [02:46:19]: build not needed 455s autopkgtest [02:46:20]: test run-unit-test: preparing testbed 458s Reading package lists... 459s Building dependency tree... 459s Reading state information... 460s Starting pkgProblemResolver with broken count: 0 460s Starting 2 pkgProblemResolver with broken count: 0 460s Done 462s The following additional packages will be installed: 462s centrifuge curl hisat2 jellyfish libcurl3t64-gnutls libcurl4t64 libdeflate0 462s libgnutls30t64 libhogweed6t64 libhts3t64 libhtscodecs2 libjellyfish-2.0-2 462s libnettle8t64 libpsl5t64 462s Suggested packages: 462s gnutls-bin 462s Recommended packages: 462s python3-hisat2 bcftools samtools 462s The following packages will be REMOVED: 462s libcurl3-gnutls libcurl4 libgnutls30 libhogweed6 libnettle8 libpsl5 462s The following NEW packages will be installed: 462s autopkgtest-satdep centrifuge hisat2 jellyfish libcurl3t64-gnutls 462s libcurl4t64 libdeflate0 libgnutls30t64 libhogweed6t64 libhts3t64 462s libhtscodecs2 libjellyfish-2.0-2 libnettle8t64 libpsl5t64 462s The following packages will be upgraded: 462s curl 462s 1 upgraded, 14 newly installed, 6 to remove and 0 not upgraded. 462s Need to get 8193 kB/8193 kB of archives. 462s After this operation, 18.2 MB of additional disk space will be used. 462s Get:1 /tmp/autopkgtest.fElsYB/2-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [704 B] 462s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libnettle8t64 arm64 3.9.1-2.2 [192 kB] 462s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libhogweed6t64 arm64 3.9.1-2.2 [199 kB] 462s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgnutls30t64 arm64 3.8.3-1.1ubuntu2 [1042 kB] 463s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcurl4t64 arm64 8.5.0-2ubuntu7 [332 kB] 463s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 curl arm64 8.5.0-2ubuntu7 [222 kB] 463s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpsl5t64 arm64 0.21.2-1.1 [57.4 kB] 463s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcurl3t64-gnutls arm64 8.5.0-2ubuntu7 [327 kB] 463s Get:9 http://ftpmaster.internal/ubuntu noble/universe arm64 hisat2 arm64 2.2.1-4 [3904 kB] 463s Get:10 http://ftpmaster.internal/ubuntu noble/main arm64 libdeflate0 arm64 1.19-1 [43.4 kB] 463s Get:11 http://ftpmaster.internal/ubuntu noble/universe arm64 libhtscodecs2 arm64 1.6.0-1 [78.1 kB] 463s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 libhts3t64 arm64 1.19+ds-1.1build2 [429 kB] 463s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 libjellyfish-2.0-2 arm64 2.3.1-3 [66.1 kB] 463s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 jellyfish arm64 2.3.1-3 [710 kB] 463s Get:15 http://ftpmaster.internal/ubuntu noble/universe arm64 centrifuge arm64 1.0.3-11 [591 kB] 464s Fetched 8193 kB in 1s (8266 kB/s) 464s dpkg: libhogweed6:arm64: dependency problems, but removing anyway as you requested: 464s librtmp1:arm64 depends on libhogweed6. 464s libjcat1:arm64 depends on libhogweed6. 464s libgnutls30:arm64 depends on libhogweed6 (>= 3.6). 464s 464s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75854 files and directories currently installed.) 464s Removing libhogweed6:arm64 (3.9.1-2) ... 464s dpkg: libnettle8:arm64: dependency problems, but removing anyway as you requested: 464s librtmp1:arm64 depends on libnettle8. 464s libgnutls30:arm64 depends on libnettle8 (>= 3.9~). 464s libcurl3-gnutls:arm64 depends on libnettle8. 464s libarchive13:arm64 depends on libnettle8. 464s 464s Removing libnettle8:arm64 (3.9.1-2) ... 464s Selecting previously unselected package libnettle8t64:arm64. 465s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75842 files and directories currently installed.) 465s Preparing to unpack .../libnettle8t64_3.9.1-2.2_arm64.deb ... 465s Unpacking libnettle8t64:arm64 (3.9.1-2.2) ... 465s Selecting previously unselected package libhogweed6t64:arm64. 465s Preparing to unpack .../libhogweed6t64_3.9.1-2.2_arm64.deb ... 465s Unpacking libhogweed6t64:arm64 (3.9.1-2.2) ... 465s dpkg: libgnutls30:arm64: dependency problems, but removing anyway as you requested: 465s u-boot-tools depends on libgnutls30 (>= 3.7.3). 465s librtmp1:arm64 depends on libgnutls30 (>= 3.7.2). 465s libldap2:arm64 depends on libgnutls30 (>= 3.8.2). 465s libjcat1:arm64 depends on libgnutls30 (>= 3.7.3). 465s libcurl3-gnutls:arm64 depends on libgnutls30 (>= 3.8.2). 465s fwupd depends on libgnutls30 (>= 3.7.3). 465s dirmngr depends on libgnutls30 (>= 3.8.1). 465s apt depends on libgnutls30 (>= 3.8.1). 465s 465s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75856 files and directories currently installed.) 465s Removing libgnutls30:arm64 (3.8.3-1ubuntu1) ... 465s Selecting previously unselected package libgnutls30t64:arm64. 465s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75847 files and directories currently installed.) 465s Preparing to unpack .../libgnutls30t64_3.8.3-1.1ubuntu2_arm64.deb ... 465s Unpacking libgnutls30t64:arm64 (3.8.3-1.1ubuntu2) ... 465s dpkg: libcurl4:arm64: dependency problems, but removing anyway as you requested: 465s curl depends on libcurl4 (= 8.5.0-2ubuntu2). 465s 466s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75875 files and directories currently installed.) 466s Removing libcurl4:arm64 (8.5.0-2ubuntu2) ... 466s Selecting previously unselected package libcurl4t64:arm64. 466s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75870 files and directories currently installed.) 466s Preparing to unpack .../libcurl4t64_8.5.0-2ubuntu7_arm64.deb ... 466s Unpacking libcurl4t64:arm64 (8.5.0-2ubuntu7) ... 466s Preparing to unpack .../curl_8.5.0-2ubuntu7_arm64.deb ... 466s Unpacking curl (8.5.0-2ubuntu7) over (8.5.0-2ubuntu2) ... 466s dpkg: libpsl5:arm64: dependency problems, but removing anyway as you requested: 466s wget depends on libpsl5 (>= 0.16.0). 466s libcurl3-gnutls:arm64 depends on libpsl5 (>= 0.16.0). 466s 466s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75876 files and directories currently installed.) 466s Removing libpsl5:arm64 (0.21.2-1build1) ... 466s Selecting previously unselected package libpsl5t64:arm64. 466s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75871 files and directories currently installed.) 466s Preparing to unpack .../libpsl5t64_0.21.2-1.1_arm64.deb ... 466s Unpacking libpsl5t64:arm64 (0.21.2-1.1) ... 466s dpkg: libcurl3-gnutls:arm64: dependency problems, but removing anyway as you requested: 466s libfwupd2:arm64 depends on libcurl3-gnutls (>= 7.63.0). 466s fwupd depends on libcurl3-gnutls (>= 7.63.0). 466s 467s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75877 files and directories currently installed.) 467s Removing libcurl3-gnutls:arm64 (8.5.0-2ubuntu2) ... 467s Selecting previously unselected package libcurl3t64-gnutls:arm64. 467s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 75870 files and directories currently installed.) 467s Preparing to unpack .../0-libcurl3t64-gnutls_8.5.0-2ubuntu7_arm64.deb ... 467s Unpacking libcurl3t64-gnutls:arm64 (8.5.0-2ubuntu7) ... 467s Selecting previously unselected package hisat2. 467s Preparing to unpack .../1-hisat2_2.2.1-4_arm64.deb ... 467s Unpacking hisat2 (2.2.1-4) ... 467s Selecting previously unselected package libdeflate0:arm64. 467s Preparing to unpack .../2-libdeflate0_1.19-1_arm64.deb ... 467s Unpacking libdeflate0:arm64 (1.19-1) ... 467s Selecting previously unselected package libhtscodecs2:arm64. 467s Preparing to unpack .../3-libhtscodecs2_1.6.0-1_arm64.deb ... 467s Unpacking libhtscodecs2:arm64 (1.6.0-1) ... 467s Selecting previously unselected package libhts3t64:arm64. 467s Preparing to unpack .../4-libhts3t64_1.19+ds-1.1build2_arm64.deb ... 467s Unpacking libhts3t64:arm64 (1.19+ds-1.1build2) ... 468s Selecting previously unselected package libjellyfish-2.0-2:arm64. 468s Preparing to unpack .../5-libjellyfish-2.0-2_2.3.1-3_arm64.deb ... 468s Unpacking libjellyfish-2.0-2:arm64 (2.3.1-3) ... 468s Selecting previously unselected package jellyfish. 468s Preparing to unpack .../6-jellyfish_2.3.1-3_arm64.deb ... 468s Unpacking jellyfish (2.3.1-3) ... 468s Selecting previously unselected package centrifuge. 468s Preparing to unpack .../7-centrifuge_1.0.3-11_arm64.deb ... 468s Unpacking centrifuge (1.0.3-11) ... 468s Selecting previously unselected package autopkgtest-satdep. 468s Preparing to unpack .../8-2-autopkgtest-satdep.deb ... 468s Unpacking autopkgtest-satdep (0) ... 468s Setting up libhtscodecs2:arm64 (1.6.0-1) ... 468s Setting up libpsl5t64:arm64 (0.21.2-1.1) ... 468s Setting up libdeflate0:arm64 (1.19-1) ... 468s Setting up libjellyfish-2.0-2:arm64 (2.3.1-3) ... 468s Setting up libnettle8t64:arm64 (3.9.1-2.2) ... 468s Setting up hisat2 (2.2.1-4) ... 468s Setting up libhogweed6t64:arm64 (3.9.1-2.2) ... 468s Setting up libgnutls30t64:arm64 (3.8.3-1.1ubuntu2) ... 468s Setting up libcurl4t64:arm64 (8.5.0-2ubuntu7) ... 468s Setting up libcurl3t64-gnutls:arm64 (8.5.0-2ubuntu7) ... 468s Setting up libhts3t64:arm64 (1.19+ds-1.1build2) ... 468s Setting up curl (8.5.0-2ubuntu7) ... 468s Setting up jellyfish (2.3.1-3) ... 468s Setting up centrifuge (1.0.3-11) ... 468s Setting up autopkgtest-satdep (0) ... 468s Processing triggers for man-db (2.12.0-3) ... 469s Processing triggers for libc-bin (2.39-0ubuntu2) ... 477s (Reading database ... 76000 files and directories currently installed.) 477s Removing autopkgtest-satdep (0) ... 478s autopkgtest [02:46:43]: test run-unit-test: [----------------------- 478s Test 1 478s Settings: 478s Output files: "test.*.cf" 478s Line rate: 7 (line is 128 bytes) 478s Lines per side: 1 (side is 128 bytes) 478s Offset rate: 4 (one in 16) 478s FTable chars: 10 478s Strings: unpacked 478s Local offset rate: 3 (one in 8) 478s Local fTable chars: 6 478s Max bucket size: default 478s Max bucket size, sqrt multiplier: default 478s Max bucket size, len divisor: 4 478s Difference-cover sample period: 1024 478s Endianness: little 478s Actual local endianness: little 478s Sanity checking: disabled 478s Assertions: disabled 478s Random seed: 0 478s Sizeofs: void*:8, int:4, long:8, size_t:8 478s Input files DNA, FASTA: 478s reference/test.fa 478s Reading reference sizes 478s Time reading reference sizes: 00:00:00 478s Calculating joined length 478s Writing header 478s Reserving space for joined string 478s Joining reference sequences 478s Time to join reference sequences: 00:00:00 478s bmax according to bmaxDivN setting: 268 478s Using parameters --bmax 201 --dcv 1024 478s Doing ahead-of-time memory usage test 478s Passed! Constructing with these parameters: --bmax 201 --dcv 1024 478s Constructing suffix-array element generator 478s Building DifferenceCoverSample 478s Building sPrime 478s Building sPrimeOrder 478s V-Sorting samples 478s V-Sorting samples time: 00:00:00 478s Allocating rank array 478s Ranking v-sort output 478s Ranking v-sort output time: 00:00:00 478s Invoking Larsson-Sadakane on ranks 478s Invoking Larsson-Sadakane on ranks time: 00:00:00 478s Sanity-checking and returning 478s Building samples 478s Reserving space for 12 sample suffixes 478s Generating random suffixes 478s QSorting 12 sample offsets, eliminating duplicates 478s QSorting sample offsets, eliminating duplicates time: 00:00:00 478s Multikey QSorting 12 samples 478s (Using difference cover) 478s Multikey QSorting samples time: 00:00:00 478s Calculating bucket sizes 478s Splitting and merging 478s Splitting and merging time: 00:00:00 478s Split 1, merged 7; iterating... 478s Splitting and merging 478s Splitting and merging time: 00:00:00 478s Split 1, merged 1; iterating... 478s Splitting and merging 478s Splitting and merging time: 00:00:00 478s Split 1, merged 1; iterating... 478s Splitting and merging 478s Splitting and merging time: 00:00:00 478s Split 1, merged 0; iterating... 478s Splitting and merging 478s Splitting and merging time: 00:00:00 478s Split 1, merged 1; iterating... 478s Avg bucket size: 133.25 (target: 200) 478s Converting suffix-array elements to index image 478s Allocating ftab, absorbFtab 478s Entering Ebwt loop 478s Getting block 1 of 8 478s Reserving size (201) for bucket 1 478s Calculating Z arrays for bucket 1 478s Entering block accumulator loop for bucket 1: 478s bucket 1: 10% 478s bucket 1: 20% 478s bucket 1: 30% 478s bucket 1: 40% 478s bucket 1: 50% 478s bucket 1: 60% 478s bucket 1: 70% 478s bucket 1: 80% 478s bucket 1: 90% 478s bucket 1: 100% 478s Sorting block of length 192 for bucket 1 478s (Using difference cover) 478s Sorting block time: 00:00:00 478s Returning block of 193 for bucket 1 478s Getting block 2 of 8 478s Reserving size (201) for bucket 2 478s Calculating Z arrays for bucket 2 478s Entering block accumulator loop for bucket 2: 478s bucket 2: 10% 478s bucket 2: 20% 478s bucket 2: 30% 478s bucket 2: 40% 478s bucket 2: 50% 478s bucket 2: 60% 478s bucket 2: 70% 478s bucket 2: 80% 478s bucket 2: 90% 478s bucket 2: 100% 478s Sorting block of length 75 for bucket 2 478s (Using difference cover) 478s Sorting block time: 00:00:00 478s Returning block of 76 for bucket 2 478s Getting block 3 of 8 478s Reserving size (201) for bucket 3 478s Calculating Z arrays for bucket 3 478s Entering block accumulator loop for bucket 3: 478s bucket 3: 10% 478s bucket 3: 20% 478s bucket 3: 30% 478s bucket 3: 40% 478s bucket 3: 50% 478s bucket 3: 60% 478s bucket 3: 70% 478s bucket 3: 80% 478s bucket 3: 90% 478s bucket 3: 100% 478s Sorting block of length 196 for bucket 3 478s (Using difference cover) 478s Sorting block time: 00:00:00 478s Returning block of 197 for bucket 3 478s Getting block 4 of 8 478s Reserving size (201) for bucket 4 478s Calculating Z arrays for bucket 4 478s Entering block accumulator loop for bucket 4: 478s bucket 4: 10% 478s bucket 4: 20% 478s bucket 4: 30% 478s bucket 4: 40% 478s bucket 4: 50% 478s bucket 4: 60% 478s bucket 4: 70% 478s bucket 4: 80% 478s bucket 4: 90% 478s bucket 4: 100% 478s Sorting block of length 193 for bucket 4 478s (Using difference cover) 478s Sorting block time: 00:00:00 478s Returning block of 194 for bucket 4 478s Getting block 5 of 8 478s Reserving size (201) for bucket 5 478s Calculating Z arrays for bucket 5 478s Entering block accumulator loop for bucket 5: 478s bucket 5: 10% 478s bucket 5: 20% 478s bucket 5: 30% 478s bucket 5: 40% 478s bucket 5: 50% 478s bucket 5: 60% 478s bucket 5: 70% 478s bucket 5: 80% 478s bucket 5: 90% 478s bucket 5: 100% 478s Sorting block of length 133 for bucket 5 478s (Using difference cover) 478s Sorting block time: 00:00:00 478s Returning block of 134 for bucket 5 478s Getting block 6 of 8 478s Reserving size (201) for bucket 6 478s Calculating Z arrays for bucket 6 478s Entering block accumulator loop for bucket 6: 478s bucket 6: 10% 478s bucket 6: 20% 478s bucket 6: 30% 478s bucket 6: 40% 478s bucket 6: 50% 478s bucket 6: 60% 478s bucket 6: 70% 478s bucket 6: 80% 478s bucket 6: 90% 478s bucket 6: 100% 478s Sorting block of length 69 for bucket 6 478s (Using difference cover) 478s Sorting block time: 00:00:00 478s Returning block of 70 for bucket 6 478s Getting block 7 of 8 478s Reserving size (201) for bucket 7 478s Calculating Z arrays for bucket 7 478s Entering block accumulator loop for bucket 7: 478s bucket 7: 10% 478s bucket 7: 20% 478s bucket 7: 30% 478s bucket 7: 40% 478s bucket 7: 50% 478s bucket 7: 60% 478s bucket 7: 70% 478s bucket 7: 80% 478s bucket 7: 90% 478s bucket 7: 100% 478s Sorting block of length 37 for bucket 7 478s (Using difference cover) 478s Sorting block time: 00:00:00 478s Returning block of 38 for bucket 7 478s Getting block 8 of 8 478s Reserving size (201) for bucket 8 478s Calculating Z arrays for bucket 8 478s Entering block accumulator loop for bucket 8: 478s bucket 8: 10% 478s bucket 8: 20% 478s bucket 8: 30% 478s bucket 8: 40% 478s bucket 8: 50% 478s bucket 8: 60% 478s bucket 8: 70% 478s bucket 8: 80% 478s bucket 8: 90% 478s bucket 8: 100% 478s Sorting block of length 171 for bucket 8 478s (Using difference cover) 478s Sorting block time: 00:00:00 478s Returning block of 172 for bucket 8 478s Exited Ebwt loop 478s fchr[A]: 0 478s fchr[C]: 206 478s fchr[G]: 537 478s fchr[T]: 815 478s fchr[$]: 1073 479s Exiting Ebwt::buildToDisk() 479s Returning from initFromVector 479s Wrote 8389424 bytes to primary EBWT file: test.1.cf 479s Wrote 140 bytes to secondary EBWT file: test.2.cf 479s Re-opening _in1 and _in2 as input streams 479s Returning from Ebwt constructor 479s Headers: 479s len: 1073 479s bwtLen: 1074 479s sz: 269 479s bwtSz: 269 479s lineRate: 7 479s offRate: 4 479s offMask: 0xfffffffffffffff0 479s ftabChars: 10 479s eftabLen: 20 479s eftabSz: 160 479s ftabLen: 1048577 479s ftabSz: 8388616 479s offsLen: 68 479s offsSz: 544 479s lineSz: 128 479s sideSz: 128 479s sideBwtSz: 96 479s sideBwtLen: 384 479s numSides: 3 479s numLines: 3 479s ebwtTotLen: 384 479s ebwtTotSz: 384 479s color: 0 479s reverse: 0 479s Total time for call to driver() for forward index: 00:00:01 479s PASS 479s Test 2 479s readID seqID taxID score 2ndBestScore hitLength queryLength numMatches 479s C_1 gi|7 9913 4225 4225 80 80 2 479s C_1 gi|4 9646 4225 4225 80 80 2 479s C_2 gi|4 9646 4225 4225 80 80 2 479s C_2 gi|7 9913 4225 4225 80 80 2 479s C_3 gi|7 9913 4225 4225 80 80 2 479s C_3 gi|4 9646 4225 4225 80 80 2 479s C_4 gi|4 9646 4225 4225 80 80 2 479s C_4 gi|7 9913 4225 4225 80 80 2 479s 1_1 gi|4 9646 4225 0 80 80 1 479s 1_2 gi|4 9646 4225 0 80 80 1 479s 2_1 gi|7 9913 4225 0 80 80 1 479s 2_2 gi|7 9913 4225 0 80 80 1 479s 2_3 gi|7 9913 4225 0 80 80 1 479s 2_4 gi|7 9913 4225 0 80 80 1 479s 2_5 gi|7 9913 4225 0 80 80 1 479s 2_6 gi|7 9913 4225 0 80 80 1 479s report file centrifuge_report.tsv 479s Number of iterations in EM algorithm: 2 479s Probability diff. (P - P_prev) in the last iteration: 1.80078e-13 479s Calculating abundance: 00:00:00 479s name taxID taxRank genomeSize numReads numUniqueReads abundance 479s Ailuropoda melanoleuca 9646 species 556 6 2 0.230286 479s Bos taurus 9913 species 517 10 6 0.769714 479s PASS 479s autopkgtest [02:46:44]: test run-unit-test: -----------------------] 480s autopkgtest [02:46:45]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 480s run-unit-test PASS 480s autopkgtest [02:46:45]: @@@@@@@@@@@@@@@@@@@@ summary 480s run-unit-test PASS 491s Creating nova instance adt-noble-arm64-centrifuge-20240320-023845-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-arm64-server-20240319.img (UUID bfed3386-9aa1-4bc1-82f0-b2c10d5a6a9e)...